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IGB displays insertions, deletions and mismatches as color-coded bases and icons on top of read alignments, as shown in the following image.follows:

• Insertions -

  bases

  residues flanking insertion site appear are shown in white with a black background; triangular shapes between them point

  at

  to the location of the inserted base

  or bases that are

  (s) present in the aligned sequence but not in the reference. Select an insertion to display the sequence of inserted bases.

• Deletions - bases residues deleted in the aligned sequenced relative to the  the reference appear in gray with underscore characters
• Mismatches - bases residues in the aligned sequence that do not match the corresponding base in the reference appear as higlighted highlighted bases. To highlight mismatches, click Load Sequence

Use the zoom stripe (shown in gray) as a guide to compare mismatches, deletions, and insertions between different read alignments and the reference.

To re-create this scene in IGB:

...